Chun Liang

Chun Liang

Professor

350 Pearson Hall
513-529-2336
liangc@MiamiOH.edu
Bioinfo Laboratory

Biographical Information

My bioinformatics lab focuses on three primary research areas: (1) develop bioinformatics software tools, (2) build and maintain biological databases, and (3) conduct data analysis and data mining to address interesting biological questions.  Currently, we are working with many different bioinformatics projects, including genome-wide detection and functional characterization of DNA and RNA transposons, In silico exploration of DNA repeats (e.g., inverted repeats) and their potential roles in gene expression regulation, CRISPR-based DNA and RNA editing: target design and specificity, genome-wide detection of CRISPRs in prokaryotic genomes, DNA methylation and its role in tissue regeneration, RNA-Seq based transcriptome analysis and differentially expressed gene analysis, small non-coding RNAs (miRNAs, siRNAs and piRNAs) biogenesis and their differential expression analysis, genome-wide analysis of alternative polyadenylation and alternative splicing in eukaryotes, cancer genomics, etc.

Courses Taught

  • BIO/CHM/CSE/MBI 466-566: Bioinformatics Computing Skills
  • BIO/MBI 485-585 CSE 456-556: Bioinformatics Principles
  • BIO/CSE/MBI 256: Introduction to Programming for the Life Sciences
  • BIO 131: Plants, Humanity, and the Environment

Recent Publications

  • Cao J, Zhu Q, Liu L, Glazier BJ, Hinke BC, Liang C and Shi H (2018). Global Transcriptome Analysis of Brown Adipose Tissue of Diet-Induced Obese Mice. Int. J. Mol. Sci., 19(4):1095
  • Zhu H, Richmond E, Liang C (2018). CRISPR-RT: A web application for designing CRISPR-C2c2 crRNA with improved target specificity. Bioinformatics, 34(1):117-119
  • Mao R, Liang C, Zhang Y, Hao X, Li J (2017). 50/50 Expressional Odds of Retention Signifies the Distinction between Retained Introns and Constitutively Spliced Introns in Arabidopsis thaliana. Front Plant Sci, 8:1728
  • Zhu H, Richmond E, Liang C (2018). CRISPR-RT: A web application for designing CRISPR-C2c2 crRNA with improved target specificity. Bioinformatics, 34(1):117-119
  • Mao R, Liang C, Zhang Y, Hao X, Li J (2017). 50/50 Expressional Odds of Retention Signifies the Distinction between Retained Introns and Constitutively Spliced Introns in Arabidopsis thaliana. Front Plant Sci, 8:1728
  • Moller AG, Liang C (2017) MetaCRAST: reference-guided extraction of CRISPR spacers from unassembled metagenomes. PeerJ, 5:e3788
  • Shi J, Li X, Dong M, Graham M+, Yadav N, Liang C (2017) JNSViewer - a JavaScript-based Nucleotide Sequence Viewer for DNA/RNA secondary structures. PLOS ONE, 12(6):e0179040
  • Guo C, Spinelli M, Ye C, Li QQ**, Liang C(2017) Genome-Wide Comparative Analysis of Miniature Inverted Repeat Transposable Elements in 19 Arabidopsis thaliana Ecotype Accessions. Scientific Reports, 7:2634
  • Wang K, Liang C (2017) CRF: detection of CRISPR arrays using random forest. PeerJ, 5:e3219
  • Raj-Kumar P, Vallon O, Liang C (2017) In silico analysis of the sequence features responsible for alternatively spliced introns in the model green alga Chlamydomonas reinhardtii. Plant Mol Biol, 94:253-265
  • Moller AG, Liang C (2017) Determining virus-host interactions and glycerol metabolism profiles in geographically diverse solar salterns with metagenomics. PeerJ, 5:e2844.
  • Guo C, Spinelli M, Liu M, Li QQ, Liang C (2016) A Genome-wide Study of "Non-3UTR" Polyadenylation Sites in Arabidopsis thaliana, Scientific Reports, 6:28060.
  • Li L, Guo C, Wang B, Zhou T, Lei Y, Dai Y, He W, Liang C, Wang X (2016) RNAi-mediated transgenic rice resistance to Rice stripe virus, Journal of Integrative Agriculture, 15:60345-7.
  • Zhu H, Misel L, Graham M, Robinson ML, Liang C (2016) CT-Finder: A Web Service for CRISPR Optimal Target Prediction and Visualization, Scientific Reports, 6:25516.
  • Ye C, Ji G, Liang C (2016) detectMITE: A novel approach to detect miniature inverted repeat transposable elements in genomes, Scientific Reports, 6:19688.